GgaINT1029887 @ galGal4
Intron Retention
Gene
ENSGALG00000028882 | VWCE
Description
von Willebrand factor C and EGF domains [Source:HGNC Symbol;Acc:HGNC:26487]
Coordinates
chr5:406999-407275:+
Coord C1 exon
chr5:406999-407084
Coord A exon
chr5:407085-407157
Coord C2 exon
chr5:407158-407275
Length
73 bp
Sequences
Splice sites
5' ss Seq
CGGGTGGGT
5' ss Score
6.14
3' ss Seq
ATGCTCCCTTCTCCCCACAGAGC
3' ss Score
12.85
Exon sequences
Seq C1 exon
CAAAATGCAGCTTCCGTGGTCGGACCTACGCGCACGGAGCCCGCTTCAGCTTGGATGGGGACGAGTGCACCACCTGCGTCTGCCGG
Seq A exon
GTGGGTCCGGGGCGCTGCTCGTGGTCCCGTGGGCGGCACGGAGCTGCTGGGTGATGCTCCCTTCTCCCCACAG
Seq C2 exon
AGCGGGGAGGTGGAGTGCTCCTTTGCCCCGTGCCCGGTGCTGGACTGTCCCCAGCAGCAGCGGCAGCTGCGCCCCGGGCAGTGCTGCTTCAGCTGCAAGGACCCCCCGCGCCCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028882:ENSGALT00000045690:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=PU(44.1=89.7)
A:
NA
C2:
PF0009313=VWC=PD(52.5=77.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGGTCGGACCTACGCG
R:
GGTCCTTGCAGCTGAAGCAG
Band lengths:
175-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]